2014 Publications

Amrine, D. H., Katherine C. H. ;. Swingley, Wesley D. ;. Ardell. (2014). TRNA Signatures Reveal a Polyphyletic Origin of SAR11 Strains among Alphaproteobacteria. 10(2), e1003454. https://doi.org/10.1371/journal.pcbi.1003454

Aronson, M., Myla F. J. ;. La Sorte, Frank A. ;. Nilon, Charles H. ;. Katti, Madhusudan; Goddard, Mark A. ;. Lepczyk, Christopher A. ;. Warren, Paige S. ;. Williams, Nicholas S. G. ;. Cilliers, Sarel; Clarkson, Bruce; Dobbs, Cynnamon; Dolan, Rebecca; Hedblom, Marcus; Klotz, Stefan; Kooijmans, Jip Louwe; Kühn, Ingolf; MacGregor-Fors, Ian; McDonnell, Mark; Mörtberg, Ulla; Pyšek, Petr; Siebert, Stefan; Sushinsky, Jessica; Werner, Peter; Winter. (2014). A global analysis of the impacts of urbanization on bird and plant diversity reveals key anthropogenic drivers. 281(1780), 20133330. https://doi.org/10.1098/rspb.2013.3330

Aronson, B. others, Myla FJ; La Sorte, Frank A; Nilon, Charles H; Katti, Madhusudan; Goddard, Mark A; Lepczyk, Christopher A; Warren, Paige S; Williams, Nicholas SG; Cilliers, Sarel; Clarkson. (2014). A global analysis of the impacts of urbanization on bird and plant diversity reveals key anthropogenic drivers. 281(1780), 20133330.

Barton, S. P., Carl; Iliopoulos, Costas S. ;. Lee, Inbok; Mouchard, Laurent; Park, Kunsoo; Pissis. (2014). Extending alignments with k -mismatches and ℓ -gaps. 525, 80–88. https://doi.org/10.1016/j.tcs.2013.06.012

Belamkar, S. B., Vikas; Weeks, Nathan T; Bharti, Arvind K; Farmer, Andrew D; Graham, Michelle A; Cannon. (2014). Comprehensive characterization and RNA-Seq profiling of the HD-Zip transcription factor family in soybean (Glycine max) during dehydration and salt stress. 15(1), 950. https://doi.org/10.1186/1471-2164-15-950

Brauer, S. C., Elizabeth K. ;. Singh, Dharmendra K. ;. Popescu. (2014). Next-generation plant science: Putting big data to work. 15(1), 301. https://doi.org/10.1186/gb4149

Brunbjerg, J.-C., A. K. ;. Cavender-Bares, J. ;. Eiserhardt, W. L. ;. Ejrnaes, R. ;. Aarssen, L. W. ;. Buckley, H. L. ;. Forey, E. ;. Jansen, F. ;. Kattge, J. ;. Lane, C. ;. Lubke, R. A. ;. Moles, A. T. ;. Monserrat, A. L. ;. Peet, R. K. ;. Roncal, J. ;. Wootton, L. ;. Svenning. (2014). Multi-scale phylogenetic structure in coastal dune plant communities across the globe. 7(2), 101–114. https://doi.org/10.1093/jpe/rtt069

Buckner, B. (2014, January 11). Introducing Genome Browsers, Genome Structure, and Gene Annotation.

Caciula, A. (2014). Optimization techniques for next-generation sequencing data analysis.

Campbell, M., Michael S. ;. Holt, Carson; Moore, Barry; Yandell. (2014a). Genome Annotation and Curation Using MAKER and MAKER-P: Genome Annotation and Curation Using MAKER and MAKER-P (J. R. Bateman Alex; Pearson, William R. ;. Stein, Lincoln D. ;. Stormo, Gary D. ;. Yates, Ed.; p. 4.11.1-4.11.39). http://doi.wiley.com/10.1002/0471250953.bi0411s48

Campbell, M., Michael S. ;. Law, MeiYee; Holt, Carson; Stein, Joshua C. ;. Moghe, Gaurav D. ;. Hufnagel, David E. ;. Lei, Jikai; Achawanantakun, Rujira; Jiao, Dian; Lawrence, Carolyn J. ;. Ware, Doreen; Shiu, Shin-Han; Childs, Kevin L. ;. Sun, Yanni; Jiang, Ning; Yandell. (2014b). MAKER-P: A Tool Kit for the Rapid Creation, Management, and Quality Control of Plant Genome Annotations. 164(2), 513–524. https://doi.org/10.1104/pp.113.230144

Carnaby, S., Penny; Charters, Stuart; Staincliffe, Paul; Cahalane, Rosie; Laurenson, Matthew; Gibb, Robert; McGlinchy, Aaron; Sutherland. (2014). Lincoln Hub data and information architecture project: DATA$^2$: Data architecture transforming access & analysis.

Chalhoub, P., B. ;. Denoeud, F. ;. Liu, S. ;. Parkin, I. A. P. ;. Tang, H. ;. Wang, X. ;. Chiquet, J. ;. Belcram, H. ;. Tong, C. ;. Samans, B. ;. Correa, M. ;. Da Silva, C. ;. Just, J. ;. Falentin, C. ;. Koh, C. S. ;. Le Clainche, I. ;. Bernard, M. ;. Bento, P. ;. Noel, B. ;. Labadie, K. ;. Alberti, A. ;. Charles, M. ;. Arnaud, D. ;. Guo, H. ;. Daviaud, C. ;. Alamery, S. ;. Jabbari, K. ;. Zhao, M. ;. Edger, P. P. ;. Chelaifa, H. ;. Tack, D. ;. Lassalle, G. ;. Mestiri, I. ;. Schnel, N. ;. Le Paslier, M. C. ;. Fan, G. ;. Renault, V. ;. Bayer, P. E. ;. Golicz, A. A. ;. Manoli, S. ;. Lee, T. H. ;. Thi, V. H. D. ;. Chalabi, S. ;. Hu, Q. ;. Fan, C. ;. Tollenaere, R. ;. Lu, Y. ;. Battail, C. ;. Shen, J. ;. Sidebottom, C. H. D. ;. Wang, X. ;. Canaguier, A. ;. Chauveau, A. ;. Berard, A. ;. Deniot, G. ;. Guan, M. ;. Liu, Z. ;. Sun, F. ;. Lim, Y. P. ;. Lyons, E. ;. Town, C. D. ;. Bancroft, I. ;. Wang, X. ;. Meng, J. ;. Ma, J. ;. Pires, J. C. ;. King, G. J. ;. Brunel, D. ;. Delourme, R. ;. Renard, M. ;. Aury, J. M. ;. Adams, K. L. ;. Batley, J. ;. Snowdon, R. J. ;. Tost, J. ;. Edwards, D. ;. Zhou, Y. ;. Hua, W. ;. Sharpe, A. G. ;. Paterson, A. H. ;. Guan, C. ;. Wincker. (2014). Early allopolyploid evolution in the post-Neolithic Brassica napus oilseed genome. 345(6199), 950–953. https://doi.org/10.1126/science.1253435

Chen, V. C. M., Min; Mao, Shiwen; Zhang, Yin; Leung. (2014). Big Data. http://link.springer.com/10.1007/978-3-319-06245-7

Chen, Y., Min; Mao, Shiwen; Liu. (2014). Big data: A survey. 19(2), 171–209.

Cholia, T., Shreyas; Sun. (2014). The NEWT Platform: An Extensible Plugin Framework for Creating ReSTful HPC APIs. 17–20. https://doi.org/10.1109/GCE.2014.14

Cuccuru, G., Gianmauro; Leo, Simone; Lianas, Luca; Muggiri, Michele; Pinna, Andrea; Pireddu, Luca; Uva, Paolo; Angius, Andrea; Fotia, Giorgio; Zanetti. (2014). An automated infrastructure to support high-throughput bioinformatics. 600–607. https://doi.org/10.1109/HPCSim.2014.6903742

Dahdul, M. A., Wasila M; Cui, Hong; Mabee, Paula M; Mungall, Christopher J; Osumi-Sutherland, David; Walls, Ramona L; Haendel. (2014). Nose to tail, roots to shoots: Spatial descriptors for phenotypic diversity in the Biological Spatial Ontology. 5(1), 34. https://doi.org/10.1186/2041-1480-5-34

Das, J. S., Abhiram; Bucksch, Alexander; Price, Charles A; Weitz. (2014). ClearedLeavesDB: an online database of cleared plant leaf images. 10(1), 8. https://doi.org/10.1186/1746-4811-10-8

Der, J. P. (2014, January 14). A unified global gene family classification resource for plants and its utility for comparative genomics, genome annotation, and gene family studies.

Dooley, J., Rion; Stubbs. (2014). Dynamically Provisioning Portable Gateway Infrastructure Using Docker and Agave. 2-Jan. https://doi.org/10.1145/2616498.2616561

Duvick, J. (2014, January 14). Genome annotation in the cloud through xGDBvm virtual server instances deployed at iPlant.

Esa. (2014). The 2014 Annual Reports to the Governing Council: ESA 99 ^th Annual Meeting, Sacramento, California, August 9 ^th -15 ^th , 2014. 95(4), S1–S69. https://doi.org/10.1890/2014.councilreport

Feltus, F. A. (2014). Systems genetics: A paradigm to improve discovery of candidate genes and mechanisms underlying complex traits. 223, 45–48. https://doi.org/10.1016/j.plantsci.2014.03.003

Gardiner, A., Laura-Jayne; Gawroński, Piotr; Olohan, Lisa; Schnurbusch, Thorsten; Hall, Neil; Hall. (2014). Using genic sequence capture in combination with a syntenic pseudo genome to map a deletion mutant in a wheat species. 80(5), 895–904. https://doi.org/10.1111/tpj.12660

Gehring, T. G., Catherine; Flores-Rentería, Dulce; Sthultz, Christopher M. ;. Leonard, Tierra M. ;. Flores-Rentería, Lluvia; Whipple, Amy V. ;. Whitham. (2014). Plant genetics and interspecific competitive interactions determine ectomycorrhizal fungal community responses to climate change. 23(6), 1379–1391. https://doi.org/10.1111/mec.12503

Gnimpieba, C. M., Etienne Z. ;. Chango, Abalo; Lushbough. (2014). RNA-seq gene and transcript expression analysis using the BioExtract server and iPlant collaborative. 661–669. https://doi.org/10.1145/2649387.2660822

Goodrich, R. E., Julia K. ;. Di Rienzi, Sara C. ;. Poole, Angela C. ;. Koren, Omry; Walters, William A. ;. Caporaso, J. Gregory; Knight, Rob; Ley. (2014). Conducting a Microbiome Study. 158(2), 250–262. https://doi.org/10.1016/j.cell.2014.06.037

Gorton, I. (2014). Cyberinfrastructures: Bridging the Divide between Scientific Research and Software Engineering. 47(8), 48–55. https://doi.org/10.1109/MC.2013.336

Hanlon, E., Matthew R; Vaughn, Matthew; Mock, Stephen; Dooley, Rion; Moreira, Walter; Stubbs, Joe; Town, Chris; Miller, Jason; Krishnakumar, Vivek; Ferlanti, Erik; Pence. (2014). The Arabidopsis Information Portal: An Application Platform for Data Discovery. 38–41. https://doi.org/10.1109/GCE.2014.10

Hanssen, A. M., F. ;. Heggberget, T. ;. Bladt, J. ;. Endresen, D. ;. Forsius, M. ;. Gudmundsson, G. ;. Gärdenfors, U. ;. Heiðmarsson, S. ;. Kindvall, O. ;. Koch, W. ;. Koviula, K. ;. Laiho, E. L. ;. Laine, K. ;. Obst, M. ;. Skov, F. ;. Telenius, A. ;. Vallan, N. ;. Wasowicz, P. ;. Wremp. (2014). Nordic LifeWatch Cooperation. Final report.

Hart, M., David L. ;. Schuele, Amy; Soriano, Ester; Dahan, Maytal; Hanlon. (2014). XRAS: Allocations software as a service in XSEDE. 8-Jan. https://doi.org/10.1145/2616498.2616562

Hilgert, D., Uwe; McKay, Sheldon; Khalfan, Mohammed; Williams, Jason; Ghiban, Cornel; Micklos. (2014). DNA Subway: Making Genome Analysis Egalitarian. 3-Jan. https://doi.org/10.1145/2616498.2616575

Holmgren, J. L., Camille A. ;. Betancourt, Julio L. ;. Peñalba, M. Cristina; Delgadillo, José; Zuravnsky, Kristin; Hunter, Kimberly L. ;. Rylander, Kate A. ;. Weiss. (2014). Evidence against a Pleistocene desert refugium in the Lower Colorado River Basin. 41(9), 1769–1780. https://doi.org/10.1111/jbi.12337

Horvath, D. J. V. A. M. D. B. S. (2014, January 14). Progress in Sequencing the Genome of an Invasive Polyploid Weed (Leafy Spurge).

Huang, E. A., Pu; Feldman, Maximilian; Schroder, Stephan; Bahri, Bochra A. ;. Diao, Xianmin; Zhi, Hui; Estep, Matt; Baxter, Ivan; Devos, Katrien M. ;. Kellogg. (2014). Population genetics of Setaria viridis , a new model system. 23(20), 4912–4925. https://doi.org/10.1111/mec.12907

Hurwitz, B. (2014, January 14). iMicrobe: Advancing Clinical and Environmental Microbial Research using the iPlant Cyberinfrastructure.

Hurwitz, M. B., B. L. ;. Westveld, A. H. ;. Brum, J. R. ;. Sullivan. (2014). Modeling ecological drivers in marine viral communities using comparative metagenomics and network analyses. 111(29), 10714–10719. https://doi.org/10.1073/pnas.1319778111

Ichihashi, N. R., Y. ;. Aguilar-Martinez, J. A. ;. Farhi, M. ;. Chitwood, D. H. ;. Kumar, R. ;. Millon, L. V. ;. Peng, J. ;. Maloof, J. N. ;. Sinha. (2014). Evolutionary developmental transcriptomics reveals a gene network module regulating interspecific diversity in plant leaf shape. 111(25), E2616–E2621. https://doi.org/10.1073/pnas.1402835111

Izquierdo-Carrasco, A., Fernando; Cazes, John; Smith, Stephen A; Stamatakis. (2014). PUmPER: phylogenies updated perpetually. 30(10), 1476–1477.

Jamann, R. J., Tiffany M. ;. Poland, Jesse A. ;. Kolkman, Judith M. ;. Smith, Laurie G. ;. Nelson. (2014). Unraveling Genomic Complexity at a Quantitative Disease Resistance Locus in Maize. 198(1), 333–344. https://doi.org/10.1534/genetics.114.167486

Jazayeri, H. M., Seyed Mehdi; Melgarejo-Muñoz, Luz Marina; Romero. (2014). RNA-SEQ: A GLANCE AT TECHNOLOGIES AND METHODOLOGIES. 20(2). https://doi.org/10.15446/abc.v20n2.43639

Kanewala, M., Thejaka Amila; Marru, Suresh; Basney, Jim; Pierce. (2014). A Credential Store for Multi-tenant Science Gateways. 445–454. https://doi.org/10.1109/CCGrid.2014.95

Katz, C., Daniel S. ;. Choi, Sou-Cheng T. ;. Lapp, Hilmar; Maheshwari, Ketan; Löffler, Frank; Turk, Matthew; Hanwell, Marcus D. ;. Wilkins-Diehr, Nancy; Hetherington, James; Howison, James; Swenson, Shel; Allen, Gabrielle D. ;. Elster, Anne C. ;. Berriman, Bruce; Venters. (2014). Summary of the First Workshop on Sustainable Software for Science: Practice and Experiences (WSSSPE1). 2(1), e6. https://doi.org/10.5334/jors.an

Kim, J. H., G. ;. LeBlanc, M. L. ;. Wafula, E. K. ;. dePamphilis, C. W. ;. Westwood. (2014). Genomic-scale exchange of mRNA between a parasitic plant and its hosts. 345(6198), 808–811. https://doi.org/10.1126/science.1253122

Koesterke, D., Lars; Koltes, James E. ;. Weeks, Nathan T. ;. Milfeld, Kent; Vaughn, Matthew W. ;. Reecy, James M. ;. Stanzione. (2014). Discovery of biological networks using an optimized partial correlation coefficient with information theory algorithm on Stampede’s Xeon and Xeon Phi processors: ACCELERATED BIOLOGICAL NETWORK DISCOVERY WITH PCIT. 26(13), 2178–2190. https://doi.org/10.1002/cpe.3252

Lammers, B., Youri; Peelen, Tamara; Vos, Rutger A; Gravendeel. (2014). The HTS barcode checker pipeline, a tool for automated detection of illegally traded species from high-throughput sequencing data. 15(1), 44. https://doi.org/10.1186/1471-2105-15-44

Lawrence, S., Katherine A. ;. Wilkins-Diehr, Nancy; Wernert, Julie A. ;. Pierce, Marlon; Zentner, Michael; Marru. (2014). Who Cares about Science Gateways? A Large-Scale Survey of Community Use and Needs. 4-Jan. https://doi.org/10.1109/GCE.2014.11

LeDuc, W., Richard; Vaughn, Matthew; Fonner, John M; Sullivan, Michael; Williams, James G; Blood, Philip D; Taylor, James; Barnett. (2014). Leveraging the national cyberinfrastructure for biomedical research. 21(2), 195–199. https://doi.org/10.1136/amiajnl-2013-002059

Li, H. H. Y. W. T.-S. C. X. (2014). Toward Scalable Systems for Big Data Analytics: A Technology Tutorial. 2, 652–687. https://doi.org/10.1109/ACCESS.2014.2332453

Ma, X., Chuang; Zhang, Hao Helen; Wang. (2014). Machine learning for Big Data analytics in plants. 19(12), 798–808. https://doi.org/10.1016/j.tplants.2014.08.004

Maia, D. E., Vitor H; Gitzendanner, Matthew A; Soltis, Pamela S; Wong, Gane Ka-Shu; Soltis. (2014). Angiosperm phylogeny based on 18S/26S rDNA sequence data: Constructing a large data set using next-generation sequence data. 175(6), 613–650.

Makinde, D. (2014). African Orphan Crops Consortium: A NEPAD-led initiative. 57.

Mandadi, K. K. K.-B. G. S. (2014, January 14). Transcriptomic Analyses and Alternative Splicing Landscapes of Brachypodium Infected with Panicum Mosaic Virus.

Matasci, G. K.-S., Naim; Hung, Ling-Hong; Yan, Zhixiang; Carpenter, Eric J; Wickett, Norman J; Mirarab, Siavash; Nguyen, Nam; Warnow, Tandy; Ayyampalayam, Saravanaraj; Barker, Michael; Burleigh, J. Gordon; Gitzendanner, Matthew A; Wafula, Eric; Der, Joshua P; dePamphilis, Claude W; Roure, Béatrice; Philippe, Hervé; Ruhfel, Brad R; Miles, Nicholas W; Graham, Sean W; Mathews, Sarah; Surek, Barbara; Melkonian, Michael; Soltis, Douglas E; Soltis, Pamela S; Rothfels, Carl; Pokorny, Lisa; Shaw, Jonathan A; DeGironimo, Lisa; Stevenson, Dennis W; Villarreal, Juan Carlos; Chen, Tao; Kutchan, Toni M; Rolf, Megan; Baucom, Regina S; Deyholos, Michael K; Samudrala, Ram; Tian, Zhijian; Wu, Xiaolei; Sun, Xiao; Zhang, Yong; Wang, Jun; Leebens-Mack, Jim; Wong. (2014). Data access for the 1,000 Plants (1KP) project. 3(1), 17. https://doi.org/10.1186/2047-217X-3-17

Melicher, J. H., Dacotah; Torson, Alex S; Dworkin, Ian; Bowsher. (2014). A pipeline for the de novo assembly of the Themira biloba (Sepsidae: Diptera) transcriptome using a multiple k-mer length approach. 15(1), 188. https://doi.org/10.1186/1471-2164-15-188

Mentewab, B., Ayalew; Matheson, Kinnari; Adebiyi, Morayo; Robinson, Shanice; Elston. (2014). RNA-seq analysis of the effect of kanamycin and the ABC transporter AtWBC19 on Arabidopsis thaliana seedlings reveals changes in metal content. 9(10), e109310.

Merelli, D., Ivan; Pérez-Sánchez, Horacio; Gesing, Sandra; D’Agostino. (2014a). High-Performance Computing and Big Data in Omics-Based Medicine. 2014, 2-Jan. https://doi.org/10.1155/2014/825649

Merelli, D., Ivan; Pérez-Sánchez, Horacio; Gesing, Sandra; D’Agostino. (2014b). Managing, analysing, and integrating big data in medical bioinformatics: Open problems and future perspectives. 2014.

Michaletz, B. J., Sean T. ;. Cheng, Dongliang; Kerkhoff, Andrew J. ;. Enquist. (2014). Convergence of terrestrial plant production across global climate gradients. 512(7512), 39–43. https://doi.org/10.1038/nature13470

Micklos, D. (2014, January 11). A Simple Bioinformatics Workflow for RNA-Seq Analysis and Distributed Genome Annotation.

Minervini, S. A., Massimo; Abdelsamea, Mohammed M. ;. Tsaftaris. (2014). Image-based plant phenotyping with incremental learning and active contours. 23, 35–48. https://doi.org/10.1016/j.ecoinf.2013.07.004

Mirarab, T., S. ;. Reaz, R. ;. Bayzid, Md. S. ;. Zimmermann, T. ;. Swenson, M. S. ;. Warnow. (2014a). ASTRAL: genome-scale coalescent-based species tree estimation. 30(17), i541–i548. https://doi.org/10.1093/bioinformatics/btu462

Mirarab, T., Siavash; Bayzid, Md Shamsuzzoha; Boussau, Bastien; Warnow. (2014b). Avian Model Species Trees for 1X Model Condition for Mirarab et. Al.

Mirarab, T., Siavash; Bayzid, Md Shamsuzzoha; Boussau, Bastien; Warnow. (2014c). Bin Definition for Super Gene Trees for Mirarab et. Al.

Mirarab, T., Siavash; Bayzid, Md Shamsuzzoha; Boussau, Bastien; Warnow. (2014d). Binning Code for Mirarab et. Al.

Mirarab, T., Siavash; Bayzid, Md Shamsuzzoha; Boussau, Bastien; Warnow. (2014e). Sequence Alignments and Trees for Avian 1X for Mirarab et. Al.

Mirarab, T., Siavash; Nguyen, Nam; Warnow. (2014f). PASTA: ultra-large multiple sequence alignment. 177–191.

Mohan, T., Anup; Hacker, Thomas; Rodgers, Gregory P. ;. Islam. (2014). Batchsubmit: A high-volume batch submission system for earthquake engineering simulation: BATCHSUBMIT: A HIGH-VOLUME BATCH SUBMISSION SYSTEM. 26(13), 2240–2252. https://doi.org/10.1002/cpe.3234

Nezhad, A. S. (2014). Future of portable devices for plant pathogen diagnosis. 14(16), 2887–2904. https://doi.org/10.1039/C4LC00487F

Ningthoujam, A. D., Sanjoy Singh; Choudhury, Manabendra Dutta; Potsangbam, Kumar Singh; Chetia, Pankaj; Nahar, Lutfun; Sarker, Satyajit D. ;. Basar, Norazah; Talukdar. (2014). NoSQL Data Model for Semi-automatic Integration of Ethnomedicinal Plant Data from Multiple Sources: NoSQL Data Model for Integration of Ethnomedicinal Plant Data. 25(6), 495–507. https://doi.org/10.1002/pca.2520

Numa, T., H. ;. Itoh. (2014). MEGANTE: A Web-Based System for Integrated Plant Genome Annotation. 55(1), e2–e2. https://doi.org/10.1093/pcp/pct157

Oaks, J., Jamie R. ;. Linkem, Charles W. ;. Sukumaran. (2014). Implications of uniformly distributed, empirically informed priors for phylogeographical model selection: A reply to Hickerson et al. 68(12), 3607–3617. https://doi.org/10.1111/evo.12523

Oaks, J. R. (2014). An Improved Approximate-Bayesian Model-choice Method for Estimating Shared Evolutionary History. 14(1), 150. https://doi.org/10.1186/1471-2148-14-150

Parr, R., Cynthia S. ;. Wilson, Nathan; Leary, Patrick; Schulz, Katja; Lans, Kristen; Walley, Lisa; Hammock, Jennifer; Goddard, Anthony; Rice, Jeremy; Studer, Marie; Holmes, Jeffrey; Corrigan, Jr. (2014). The Encyclopedia of Life v2: Providing Global Access to Knowledge About Life on Earth. 2, e1079. https://doi.org/10.3897/BDJ.2.e1079

Parry, G. (2014). Components of the Arabidopsis nuclear pore complex play multiple diverse roles in control of plant growth. 65(20), 6057–6067. https://doi.org/10.1093/jxb/eru346

Poelchau, P., Monica F. ;. Huang, Xin; Goff, Allison; Reynolds, Julie; Armbruster. (2014). An Experimental and Bioinformatics Protocol for RNA-seq Analyses of Photoperiodic Diapause in the Asian Tiger Mosquito, Aedes albopictus. 93, 51961. https://doi.org/10.3791/51961

Rajasekar, Arcot. (2014). The Librarian & the Big Data: Bridging the Gap.

Rajasekar, R., Arcot; Xu, Hao; Moore. (2014). Note on Three Classes of Data Grid Operations. 2(6), 6-Jan. https://doi.org/10.4236/jcc.2014.26001

Ranjan, N. R., A. ;. Ichihashi, Y. ;. Farhi, M. ;. Zumstein, K. ;. Townsley, B. ;. David-Schwartz, R. ;. Sinha. (2014). De Novo Assembly and Characterization of the Transcriptome of the Parasitic Weed Dodder Identifies Genes Associated with Plant Parasitism. 166(3), 1186–1199. https://doi.org/10.1104/pp.113.234864

Reecy, J. C. B. E. F.-W. J. E. K. M. D. B. B. C. F. H. S.-H. C. S. R. L. F. D. J. Garrick. ; F. S.-H. B. G. M. V. (2014). Computational resources to facilitate variant discovery and analysis. 23.

Reecy, J. ; J. P. C. F. M. J. E. K. E. F.-W. J. W. E. L. C. F. B. M. W. V. (2014). Cyberinfrastructure for Life Sciences—IAnimal resources for genomics and other data driven biology. 9911.

Rees, T. (2014). Taxamatch, an Algorithm for Near (‘Fuzzy’) Matching of Scientific Names in Taxonomic Databases. 9(9), e107510. https://doi.org/10.1371/journal.pone.0107510

Rhee, M., Seung Yon; Mutwil. (2014). Towards revealing the functions of all genes in plants. 19(4), 212–221. https://doi.org/10.1016/j.tplants.2013.10.006

Robinson, R. P., Natalie; Regetz, James; Guralnick. (2014). EarthEnv-DEM90: A nearly-global, void-free, multi-scale smoothed, 90m digital elevation model from fused ASTER and SRTM data. 87, 57–67. https://doi.org/10.1016/j.isprsjprs.2013.11.002

Ruhfel, J., Brad R; Gitzendanner, Matthew A; Soltis, Pamela S; Soltis, Douglas E; Burleigh. (2014). From algae to angiosperms–inferring the phylogeny of green plants (Viridiplantae) from 360 plastid genomes. 14(1), 23. https://doi.org/10.1186/1471-2148-14-23

Sachdeva, B., Paramjit S; Edmeades, Gregory O; Mumm, Rita H; Rafalski, Antoni J; Bennett. (2014). Report of the final external review of the Generation Challenge Programme.

Schatz, W. R., Michael C; Maron, Lyza G; Stein, Joshua C; Hernandez Wences, Alejandro; Gurtowski, James; Biggers, Eric; Lee, Hayan; Kramer, Melissa; Antonio, Eric; Ghiban, Elena; Wright, Mark H; Chia, Jer-ming; Ware, Doreen; McCouch, Susan R; McCombie. (2014). New whole genome de novo assemblies of three divergent strains of rice (O. sativa) documents novel gene space of aus and indica. http://biorxiv.org/lookup/doi/10.1101/003764

Scott, T. (2014). Identification of GCN4 homologues in maize using a bioinformatics approach.

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